Nipal4 (NIPA-like domain containing 4) - Rat Genome Database

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Gene: Nipal4 (NIPA-like domain containing 4) Mus musculus
Analyze
Symbol: Nipal4
Name: NIPA-like domain containing 4
RGD ID: 1319802
MGI Page MGI
Description: Predicted to enable magnesium ion transmembrane transporter activity. Involved in magnesium ion transport. Predicted to be located in plasma membrane. Predicted to be active in membrane. Human ortholog(s) of this gene implicated in autosomal recessive congenital ichthyosis 6. Orthologous to human NIPAL4 (NIPA like domain containing 4).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 9530066K23Rik; ichthyin; magnesium transporter NIPA4; NIPA-like protein 4; non-imprinted in Prader-Willi/Angelman syndrome region protein 4 homolog; RP23-29H5.5
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391146,038,982 - 46,057,186 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1146,038,982 - 46,057,335 (-)EnsemblGRCm39 Ensembl
GRCm381146,148,155 - 46,166,359 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1146,148,155 - 46,166,508 (-)EnsemblGRCm38mm10GRCm38
MGSCv371145,961,657 - 45,979,861 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361145,991,578 - 46,009,782 (-)NCBIMGSCv36mm8
Celera1150,737,284 - 50,756,134 (-)NCBICelera
Cytogenetic Map11B1.1NCBI
cM Map1127.59NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:15317751   PMID:16141072   PMID:16141073   PMID:18667602   PMID:21267068   PMID:21677750   PMID:21873635  
PMID:29174370  


Genomics

Comparative Map Data
Nipal4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391146,038,982 - 46,057,186 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1146,038,982 - 46,057,335 (-)EnsemblGRCm39 Ensembl
GRCm381146,148,155 - 46,166,359 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1146,148,155 - 46,166,508 (-)EnsemblGRCm38mm10GRCm38
MGSCv371145,961,657 - 45,979,861 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361145,991,578 - 46,009,782 (-)NCBIMGSCv36mm8
Celera1150,737,284 - 50,756,134 (-)NCBICelera
Cytogenetic Map11B1.1NCBI
cM Map1127.59NCBI
NIPAL4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385157,460,213 - 157,474,722 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5157,460,213 - 157,474,722 (+)EnsemblGRCh38hg38GRCh38
GRCh375156,887,027 - 156,901,730 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365156,819,605 - 156,834,308 (+)NCBINCBI36Build 36hg18NCBI36
Celera5152,913,590 - 152,928,293 (+)NCBICelera
Cytogenetic Map5q33.3NCBI
HuRef5151,975,322 - 151,990,026 (+)NCBIHuRef
CHM1_15156,319,751 - 156,334,452 (+)NCBICHM1_1
T2T-CHM13v2.05157,979,233 - 157,993,740 (+)NCBIT2T-CHM13v2.0
Nipal4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81031,085,267 - 31,101,979 (-)NCBIGRCr8
mRatBN7.21030,583,926 - 30,600,640 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1030,583,926 - 30,600,640 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1035,311,174 - 35,327,879 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0103,849,620 - 3,866,325 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01030,285,634 - 30,302,343 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01031,241,394 - 31,258,105 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1031,241,394 - 31,258,105 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01031,060,605 - 31,077,316 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41031,283,585 - 31,300,297 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11031,286,597 - 31,301,325 (-)NCBI
Celera1030,036,962 - 30,053,673 (-)NCBICelera
Cytogenetic Map10q21NCBI
Nipal4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540811,635,724 - 11,650,942 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540811,635,724 - 11,648,359 (+)NCBIChiLan1.0ChiLan1.0
NIPAL4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24152,651,171 - 152,665,863 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15150,790,803 - 150,805,410 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05152,856,602 - 152,871,218 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15159,472,383 - 159,492,182 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5159,472,383 - 159,492,182 (+)Ensemblpanpan1.1panPan2
NIPAL4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1452,735,094 - 52,748,168 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl452,736,693 - 52,745,189 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha452,627,190 - 52,640,198 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0453,171,446 - 53,184,445 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl453,171,439 - 53,185,686 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1452,998,113 - 53,011,101 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0453,104,623 - 53,117,611 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0453,621,790 - 53,634,790 (-)NCBIUU_Cfam_GSD_1.0
Nipal4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213107,236,398 - 107,250,072 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365155,687,523 - 5,695,845 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365155,687,364 - 5,699,153 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NIPAL4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1665,815,295 - 65,829,296 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11665,814,588 - 65,831,788 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21671,669,182 - 71,683,851 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NIPAL4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12359,848,827 - 59,865,369 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2359,849,970 - 59,863,601 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603417,765,125 - 17,780,379 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nipal4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473331,948,414 - 31,959,894 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473331,945,996 - 31,960,187 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nipal4
685 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:820
Count of miRNA genes:477
Interacting mature miRNAs:576
Transcripts:ENSMUST00000020679
Prediction methods:Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226798Scvln18_msacral vertebrae length 2, 16 week (mouse)11325000060690826Mouse
26884446Sklq10_mskull length QTL 10, 10 week (mouse)11325000062890826Mouse
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
27226741Metcl5_mmetatarsal-calcaneal length 5, 5 week (mouse)11465000046290827Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
27226738Metcl11_mmetatarsal-calcaneal length 11, 10 week (mouse)11885000061390826Mouse
26884401Huml4_mhumerus length 4, 10 week (mouse)111155000068490826Mouse
27226762Feml21_mfemur length 21, 16 week (mouse)111175000065990826Mouse
1357640Orq2_movulation rate QTL 2 (mouse)Not determined111226863768500330Mouse
4141127W3q4_mweight 3 weeks QTL 4 (mouse)Not determined1226863768500330Mouse
4141470Egq4_mearly growth QTL 4 (mouse)Not determined1226863768500330Mouse
4142109W10q2_mweight 10 weeks QTL 2 (mouse)Not determined1226863768500330Mouse
4141582Lgaq1_mlate growth adjusted QTL 1 (mouse)Not determined1226863768500330Mouse
4142308W6q3_mweight 6 weeks QTL 3 (mouse)Not determined111226863768500330Mouse
4142216Lgq1_mlate growth QTL 1 (mouse)Not determined1226863768500330Mouse
4141966Tailq1_mtail length QTL 1 (mouse)Not determined1226863768500330Mouse
1357851Scfq3_msubcutaneous fat pad weight QTL 3 (mouse)Not determined111226863768500330Mouse
1357720Kidpq1_mkidney weight percentage QTL 1 (mouse)Not determined111226863768500330Mouse
1357437Epfq4_mepididymal fat pad weight QTL 4 (mouse)Not determined111226863768500330Mouse
1559002Lmrq4_mLeishmania major resistance QTL 4 (mouse)Not determined111226863769684947Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
1558945Orgwq8_morgan weight QTL 8 (mouse)Not determined111705617567078411Mouse
10053687Eae6_msusceptibility to experimental allergic encephalomyelitis 6 (mouse)Not determined111778196668500330Mouse
12801459Leuf1_mleukocyte filtration 1 (mouse)111857861652578716Mouse
12801460Intim2_mintima modifier 2 (mouse)111857861652578716Mouse
12801457Intmrm2_mintima/media ratio modifier 2 (mouse)111857861652578716Mouse
1300938Bulb3_mbulb size 3 (mouse)Not determined111857861652578716Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
1300579Thypr1_mthymocyte proliferative response 1 (mouse)Not determined111928257753282715Mouse
14746971Manh70_mmandible shape 70 (mouse)111990589053905890Mouse
4141398Tgq22_mtriglyceride QTL 22 (mouse)Not determined2116340655163406Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
10044006Hbnr13_mHeligmosomoides bakeri nematode resistance 13 (mouse)Not determined112577262659772741Mouse
12910801Pwbwq14_mpost-weaning body weight QTL 14 (mouse)112719805750636094Mouse
12910804Pwbwq16_mpost-weaning body weight QTL 16 (mouse)112719805750636094Mouse
12910806Pwbwq15_mpost-weaning body weight QTL 15 (mouse)112719805750636094Mouse
12910817Pwgrq20_mpost-weaning growth rate QTL 20 (mouse)112719805750636094Mouse
12910818Ogrq5_moverall growth rate QTL 5 (mouse)112719805750636094Mouse
1357844Si5lq5_mserum IGFBP-5 level QTL 5 (mouse)Not determined112816587362165976Mouse
13524848Ppiq7_mprepulse inhibition QTL 7 (mouse)112856914762569147Mouse
1301426Desp2_mdespair 2 (mouse)Not determined112870858162708700Mouse
11522752Cocia18_mcocaine-induced activity, QTL 18 (mouse)113100820965008209Mouse
11059563Lmr31_mleishmaniasis resistance 31 (mouse)113210057766100694Mouse
1357782Char8_mP. chabaudi malaria resistance QTL 8 (mouse)Not determined113557861669684987Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
1301788Lbw8_mlupus NZB x NZW 8 (mouse)Not determined113650328770509492Mouse
1301896Tria1_mT-cell receptor induced activation 1 (mouse)Not determined113661356570613855Mouse
4141853Skmw17_mskeletal muscle weight 17 (mouse)Not determined113708094171081064Mouse
4142475Ity2a_mimmunity to S. typhimurium 2a (mouse)Not determined113776858060402716Mouse
10766457Nwa3_mNew Zealand White autoimmunity 3 (mouse)113801611572016209Mouse
10053675Eae44b_mexperimental allergic encephalomyelitis susceptibility 44b (mouse)Not determined113995072854094448Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114225661776256730Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114225661776256730Mouse
1300713Vmbic10_mventral midbrain iron content 10 (mouse)Not determined114277262654081064Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114463003876854757Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000020679   ⟹   ENSMUSP00000020679
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1146,038,982 - 46,057,335 (-)Ensembl
GRCm38.p6 Ensembl1146,148,155 - 46,166,508 (-)Ensembl
RefSeq Acc Id: NM_172524   ⟹   NP_766112
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391146,038,982 - 46,057,186 (-)NCBI
GRCm381146,148,155 - 46,166,359 (-)ENTREZGENE
MGSCv371145,961,657 - 45,979,861 (-)RGD
Celera1150,737,284 - 50,756,134 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_766112 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI39820 (Get FASTA)   NCBI Sequence Viewer  
  BAC29107 (Get FASTA)   NCBI Sequence Viewer  
  EDL33826 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000020679
  ENSMUSP00000020679.3
GenBank Protein Q8BZF2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_766112   ⟸   NM_172524
- UniProtKB: A4QPF8 (UniProtKB/Swiss-Prot),   Q8BZF2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000020679   ⟸   ENSMUST00000020679

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8BZF2-F1-model_v2 AlphaFold Q8BZF2 1-406 view protein structure

Promoters
RGD ID:8674396
Promoter ID:EPDNEW_M15229
Type:initiation region
Name:Nipal4_1
Description:Mus musculus NIPA-like domain containing 4 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381146,166,359 - 46,166,419EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2444671 AgrOrtholog
Ensembl Genes ENSMUSG00000020411 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000020679 ENTREZGENE
  ENSMUST00000020679.3 UniProtKB/Swiss-Prot
InterPro Mg_trans_NIPA UniProtKB/Swiss-Prot
KEGG Report mmu:214112 UniProtKB/Swiss-Prot
MGD MGI:2444671 ENTREZGENE
NCBI Gene 214112 ENTREZGENE
PANTHER MAGNESIUM TRANSPORTER NIPA4 UniProtKB/Swiss-Prot
  PTHR12570 UniProtKB/Swiss-Prot
Pfam Mg_trans_NIPA UniProtKB/Swiss-Prot
PhenoGen Nipal4 PhenoGen
Superfamily-SCOP Multidrug resistance efflux transporter EmrE UniProtKB/Swiss-Prot
UniProt A4QPF8 ENTREZGENE
  NIPA4_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A4QPF8 UniProtKB/Swiss-Prot